{ "type": "genome", "identifier": "GCF_019331775.1", "organism": "Bifidobacterium phasiani", "title": "Bifidobacterium phasiani", "description": "na", "data type": "Genome sequencing and assembly", "organization": "University of Parma", "publication": [ {} ], "properties": { "assembly_accession": "GCF_019331775.1", "bioproject": "PRJNA224116", "biosample": "SAMN19031626", "wgs_master": "JAHBBD000000000.1", "refseq_category": "reference genome", "taxid": "2834431", "species_taxid": "2834431", "organism_name": "Bifidobacterium phasiani", "infraspecific_name": "strain=6T3", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/07/23", "asm_name": "ASM1933177v1", "asm_submitter": "University of Parma", "gbrs_paired_asm": "GCA_019331775.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/019/331/775/GCF_019331775.1_ASM1933177v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2712769", "genome_size_ungapped": "2712769", "gc_percent": "68.000000", "replicon_count": "0", "scaffold_count": "54", "contig_count": "54", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_019331775.1-RS_2024_03_28", "annotation_date": "2024-03-28", "total_gene_count": "2154", "protein_coding_gene_count": "2059", "non_coding_gene_count": "56", "pubmed_id": "34715437" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-07-23", "dateModified": "2021-07-23", "datePublished": "2021-07-23", "_annotation": { "sample_count": 1, "sample_organism": [ "Bifidobacterium phasiani" ], "sample_taxid": [ "2834431" ], "sample_host_organism": [ "Phaisanus colchicus" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Spain" ], "sample_host_location_id": [], "data_size": "0.738 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "2712769", "Number of Sequences": "54", "Longest Sequences (bp)": "274997", "N50 (bp)": "91243", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "68.1", "Number of CDSs": "2092", "Average Protein Length": "361.2", "Coding Ratio (%)": "83.6", "Number of rRNAs": "2", "Number of tRNAs": "56", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Bifidobacterium phasiani", "strain": "strain=6T3", "accession": "GCA_019331775.1", "taxid": 2834431, "species_taxid": 2834431, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 874, "total_fragments": 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"below_threshold" }, { "organism_name": "Bifidobacterium scardovii", "strain": "strain=DSM 13734", "accession": "GCA_001005065.1", "taxid": 158787, "species_taxid": 158787, "relation_to_type": "type", "validated": true, "ani": 83.1236, "matched_fragments": 471, "total_fragments": 876, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium scardovii", "strain": "strain=JCM 12489", "accession": "GCA_001042635.1", "taxid": 158787, "species_taxid": 158787, "relation_to_type": "type", "validated": true, "ani": 83.1102, "matched_fragments": 470, "total_fragments": 876, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium platyrrhinorum", "strain": "strain=SMA15", "accession": "GCA_010667645.1", "taxid": 2661628, "species_taxid": 2661628, "relation_to_type": "type", "validated": true, "ani": 82.9196, "matched_fragments": 448, "total_fragments": 876, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium santillanense", "strain": "strain=MA2", "accession": "GCA_018555385.1", "taxid": 2809028, "species_taxid": 2809028, "relation_to_type": "type", "validated": true, "ani": 82.8938, "matched_fragments": 469, "total_fragments": 876, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium amazonense", "strain": "strain=MA1", "accession": "GCA_018555435.2", "taxid": 2809027, "species_taxid": 2809027, "relation_to_type": "type", "validated": true, "ani": 82.5978, "matched_fragments": 466, "total_fragments": 876, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium stellenboschense", "strain": "strain=DSM 23968", "accession": "GCA_000741785.1", "taxid": 762211, "species_taxid": 762211, "relation_to_type": "type", "validated": true, "ani": 82.471, "matched_fragments": 438, "total_fragments": 876, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium parmae", "strain": "strain=Uis4E", "accession": "GCA_002860365.1", "taxid": 361854, "species_taxid": 361854, "relation_to_type": "type", "validated": true, "ani": 82.4426, "matched_fragments": 445, "total_fragments": 876, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium saguinibicoloris", "strain": "strain=79T10", "accession": "GCA_019331725.1", "taxid": 2834433, "species_taxid": 2834433, "relation_to_type": "type", "validated": true, "ani": 82.0185, "matched_fragments": 426, "total_fragments": 876, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium miconisargentati", "strain": "strain=82T25", "accession": "GCA_019331675.1", "taxid": 2834437, "species_taxid": 2834437, "relation_to_type": "type", "validated": true, "ani": 81.8447, "matched_fragments": 440, "total_fragments": 876, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium italicum", "strain": "strain=Rab10A", "accession": 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